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Single-cell omics:experimental workflow,data analyses and applications

Science China Life Sciences 2024年

作者： Fengying sun Haoyan Li dongqing sun Shaliu Fu Lei Gu Xin Shao Qinqin Wang Xin Dong Bin Duan Feiyang Xing Jun Wu Minmin Xiao Fangqing Zhao Jing-Dong J.Han Qi Liu Xiaohui Fan Chen Li Chenfei Wang Tieliu Shi Center for Bioinformatics and Computational Biology Shanghai Key Laboratory of Regulatory Biology the Institute of Biomedical Sciences and School of Life Sciences East China Normal University Beijing Institutes of Life Science Chinese Academy of Sciences Peking-Tsinghua Center for Life Sciences Academy for Advanced Interdisciplinary Studies Center for Quantitative Biology (CQB) Peking University Zhejiang Key Laboratory of Precision Diagnosis and Therapy for Major Gynecological Diseases Women’s Hospital Zhejiang University School of Medicine Key Laboratory of Advanced Theory and Application in Statistics and Data Science-MOE School of Statistics East China Normal University Shanghai 200062 China Department of Clinical Laboratory the Affiliated Wuhu Hospital of East China Normal University (The Second People's Hospital of Wuhu City) Pharmaceutical Informatics Institute College of Pharmaceutical Sciences Zhejiang University Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration (Tongji University) Ministry of Education Orthopaedic Department Tongji Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Frontier Science Center for Stem Cells School of Life Sciences and Technology Tongji University Translational Medical Center for Stem Cell Therapy and Institute for Regenerative Medicine Shanghai East Hospital Bioinformatics Department School of Life Sciences and Technology Tongji University Research Institute of Intelligent Computing Zhejiang Lab Shanghai Research Institute for Intelligent Autonomous Systems Center for Single-cell Omics School of Public Health Shanghai Jiao Tong University School of Medicine National Key Laboratory of Chinese Medicine Modernization Innovation Center of Yangtze River Delta Zhejiang University

Cells are the fundamental units of biological systems and exhibit unique development trajectories and molecular features. Our exploration of how the genomes orchestrate the formation and maintenance of each cell, and control the cellular phenotypes of various organismsis, is both captivating and intricate. Since the inception of the first single-cell RNA technology, technologies related to single-cell sequencing have experienced rapid advancements in recent years. These technologies have expanded horizontally to include single-cell genome, epigenome,proteome, and metabolome, while vertically, they have progressed to integrate multiple omics data and incorporate additional information such as spatial scRNA-seq and CRISPR screening. Single-cell omics represent a groundbreaking advancement in the biomedical field,offering profound insights into the understanding of complex diseases, including cancers. Here, we comprehensively summarize recent advances in single-cell omics technologies, with a specific focus on the methodology section. This overview aims to guide researchers in selecting appropriate methods for single-cell sequencing and related data analysis.

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Temporal control of the Aux/IAA genes BnIAA32 and BnIAA34 mediates Brassica napus dual shade responses

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Journal of Integrative Plant Biology 2024年第5期66卷 928-942页

作者： Yafei Li Yiyi Guo Yue Cao Pengguo Xia dongqing Xu Ning sun Lixi Jiang Jie Dong Institute of Crop Science College of Agriculture and BiotechnologyZhejiang UniversityHangzhou 310058China Key Laboratory of Plant Secondary Metabolism and Regulation of Zhejiang Province College of Life Sciences and MedicineZhejiang Sci-TechUniversityHangzhou310018China State Key Laboratory of Crop Genetics and Germplasm Enhancement College of AgricultureNanjing Agricultural UniversityNanjing 210095China Key Laboratory of Growth Regulation and Transformation Research of Zhejiang Province School of Life SciencesWestlake UniversityHangzhou 310024China

Precise responses to changes in light quality are crucial for plant growth and *** example,hypocotyls of shade-avoiding plants typically elongate under shade *** this typical shade-avoidance response(TSR)has been studied in Arabidopsis(Arabidopsis thaliana),the molecular mechanisms underlying shade tolerance are poorly *** we report that ***(Brassica napus)seedlings exhibit dual shade *** addition to the TSR,*** seedlings also display an atypical shade response(ASR),with shorter hypocotyls upon perception of early-shade ***-wide selective sweep analysis indicated that ASR is associated with light and auxin ***,genetic studies demonstrated that phytochrome A(BnphyA)promotes ASR,whereas BnphyB inhibits *** ASR,YUCCA8 expression is activated by early-shade cues,leading to increased auxin *** inhibits hypocotyl elongation,as young *** seedlings are highly sensitive to ***,two non-canonical AUXIN/INDOLE-3-ACETIC ACID(Aux/IAA)repressor genes,BnIAA32 and BnIAA34,are expressed during this early ***32 and BnIAA34 inhibit hypocotyl elongation under shade conditions,and mutations in BnIAA32 and BnIAA34 suppress ***,our study demonstrates that the temporal expression of BnIAA32 and BnIAA34 determines the behavior of *** seedlings following shade-induced auxin biosynthesis.

关键词： Brassica napus high-density planting IAA32/34 light signal transduction shade response temporal gene expression

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Mn-based MXene with high lithium-ion storage capacity

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Nano Research 2024年第5期17卷 4181-4191页

作者： Yanyan Wu dongqing Liu Xiaonan Wang Usman Ghani Muhammad Asim Mushtaq Jinfeng Yang Huarui sun Panagiotis Tsiakaras Xingke Cai School of Science and Ministry of Industry and Information Technology Key Laboratory of Micro-Nano Optoelectronic Information System Harbin Institute of Technology ShenzhenShenzhen 5180552 China Collaborative Innovation Center of Extreme Optics Shanxi UniversityTaiyuan 030006China Institute for Advanced Study Shenzhen UniversityShenzhen 518060China College of Mechatronics and Control Engineering Shenzhen UniversityShenzhen 518060China Laboratory of Alternative Energy Conversion Systems Department of Mechanical EngineeringSchool of EngineeringUniversity of ThessalyPedion Areos 38834Greece

3d-transition metal(Fe,Co,Ni,and Mn)-based MXene materials have been predicted to demonstrate exceptional electrochemical performance because of their good electrical conductivity and the presence of metallic atoms with multiple charge ***,until now,there have been no reports on MXenes based on Fe,Co,Ni,and Mn,due to the lack of 3d-metal-layered ***,we successfully synthesized the first 3d-transition metal-based MXenes,Mn_(2)CT_(x) by exfoliating a layered precursor derived from the anti-perovskite bulk *** as-prepared Mn_(2)CT_(x) MXene nanosheets were employed as anode materials in lithium-ion batteries,which exhibited stable storage capacity of 764.7 mAh·g^(-1) at 0.5 C,placing its storage capacities at an upper-middle level compared with other reported MXene materials as well as other Mn-based anode ***,this study opens a new avenue for MXene research by synthesizing 3d-transition metal-based MXenes for electrochemical applications.

关键词： Mn_(3)GaC Mn_(2)CT_(x) MXenes lithium-ion battery anode materials negative fading capacity

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群体决策质量评估方法及其在大学生和社区居民中的应用

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心理科学进展 2020年第1期28卷 41-54页

作者：池丽萍辛自强孙冬青中华女子学院儿童发展与教育学院北京100101 中央财经大学社会与心理学院北京100081

社会心理服务体系建设要求用心理学理论和方法开展精细化社会治理,而在多元主体共商共治的过程中出现了群体决策质量无法得到有效评估的问题。群体决策"过程-结果模型"认为应该从"双过程"(信息加工过程和人际互动过程)和"双结果"(客观... 详细信息

社会心理服务体系建设要求用心理学理论和方法开展精细化社会治理,而在多元主体共商共治的过程中出现了群体决策质量无法得到有效评估的问题。群体决策"过程-结果模型"认为应该从"双过程"(信息加工过程和人际互动过程)和"双结果"(客观结果和主观感受)两个方面综合评估群体决策质量。基于该模型建构的群体决策质量问卷自评法和录像他评法被应用于大学生和社区居民一些真实问题解决的群体决策质量评估。研究结果显示群体决策质量自评问卷效度良好,适合作为群体决策质量的自评工具;录像他评法与问卷自评法结果相互印证能够全面地反映群体决策质量,可应用于更广阔的社会治理领域中。

关键词：群体决策过程-结果模型社区议事社会治理

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新形势下加强高校基层团组织建设的若干思考

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继续教育研究 2009年第1期 90-91页

作者：孙冬青郑蓓河南师范大学青少年问题研究中心河南新乡453002

高校基层团组织是高校共青团工作活动的主要单位,也是与广大青年学生保持密切联系的重要纽带。本文深入探讨了现阶段高校基层团组织建设和管理中存在的问题,并提出相应的对策研究,以期充分发挥其应有的职能。

关键词：高校基层团组织建设

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我国产业链现代化路径及其区域性发展思路--苏粤产业链网络演变的启示

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东南学术 2022年第6期 185-196,247页

作者：郑江淮孙冬卿段继红南京大学经济学院南京大学理论经济学博士后流动站

受中美贸易摩擦、新冠肺炎疫情的冲击,全球产业链供应链面临严峻挑战,在此背景下对我国产业链现代化展开研究具有重要意义。从产业链现代化的内涵和机制来看,对地区产业结构的比较分析有必要从宏观产业分类视角拓展到产业链“小世界”... 详细信息

受中美贸易摩擦、新冠肺炎疫情的冲击,全球产业链供应链面临严峻挑战,在此背景下对我国产业链现代化展开研究具有重要意义。从产业链现代化的内涵和机制来看,对地区产业结构的比较分析有必要从宏观产业分类视角拓展到产业链“小世界”。江苏与广东是我国产业经济规模大、产业完备程度高的两大代表性省份,其产业链在网络结构特征方面存在很大差异,并在产业链现代化进程中实施了不同路径。各区域根据自身区域战略导向定位选择了适合自身产业链发展的道路,并且在不同的实现路径上取得了成功。因此,我国在推进产业链现代化进程中应以区域战略导向为主,尊重区域路径依赖,发挥区域优势互补,在全国范围内促进各区域产业链“小世界”协同发展,同时促进产业链中心产业创新,实施领航企业培育工程,提前布局战略性全局性产业链,实施产业竞争力调查和评价工程,全面提升我国产业链现代化水平。

关键词：产业链生产网络小世界产业链现代化

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全球发明人才流动网络空间结构的多极化变迁

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财贸经济 2023年第10期44卷 109-125页

作者：郑江淮孙冬卿戴玮师磊南京大学长江三角洲经济社会发展研究中心 210093 南京大学经济学院产业经济学系 210093 南京大学经济学院 210093 南京财经大学国际经贸学院 210093 南京财经大学经济学院 210093

在全球范围内实现人才集聚,以此带动创新资源集聚,提升创新驱动发展能力,对我国增强经济增长动能具有重要意义。本文利用欧洲专利局全球专利统计数据库(PATSTAT)挖掘了全球发明人才流动数据,对全球发明人才流动网络的空间结构变迁进行... 详细信息

在全球范围内实现人才集聚,以此带动创新资源集聚,提升创新驱动发展能力,对我国增强经济增长动能具有重要意义。本文利用欧洲专利局全球专利统计数据库(PATSTAT)挖掘了全球发明人才流动数据,对全球发明人才流动网络的空间结构变迁进行分析。研究发现,全球发明人才流动网络的空间结构呈现多极化变迁特征,即少数中心国家(包括美国、德国、中国等)越来越重要,而多数外围国家逐渐边缘化。针对上述典型事实,本文构建了一个内生迁移模型,并基于时间指数随机图模型(TERGM)进行计量检验,发现发明人才流动存在互惠性、路径依赖效应、聚敛效应、传递结构和循环结构等内生机制,这些内生机制推动了全球发明人才流动网络的多极化趋势。此外,地区产业结构差异影响着发明人才的流动选择,是多极化变迁中极点形成的决定性因素。上述研究结论的政策含义是:培育与创新中心国家的双向人才流动渠道,降低研发人员迁移成本,以优势高技术产业为抓手抢占新技术和新产品的高地。

关键词：发明人才流动网络多极化空间结构变迁产业结构差异时间指数随机图模型

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信任者权力对其人际信任的影响

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心理与行为研究 2018年第1期16卷 139-144页

作者：孙冬青傅鑫媛辛自强中央财经大学社会与心理学院北京100081

信任者权力对其人际信任的影响是基于双方权力的不对等实现的还是取决于信任者自身的权力水平的问题值得研究。为此,本研究在实验一中考查了信任博弈任务中信任者的权力感(与被信任者的权力水平无关)对其人际信任的影响,在实验二中通过... 详细信息

信任者权力对其人际信任的影响是基于双方权力的不对等实现的还是取决于信任者自身的权力水平的问题值得研究。为此,本研究在实验一中考查了信任博弈任务中信任者的权力感(与被信任者的权力水平无关)对其人际信任的影响,在实验二中通过角色扮演任务操纵信任者与被信任者的权力关系(对等vs.不对等),同时测量信任者的人际信任倾向。结果表明:信任者自身的权力感影响其人际信任,低权力感个体比高权力感个体更信任他人;双方权力对等与否对信任者的人际信任倾向没有影响。可见,信任者权力更多是作为信任者自身的属性特征影响其人际信任,而不以双方权力层级不对等为前提。

关键词：权力人际信任信任博弈动机认知观点

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